Preheat oven to 375 degrees.
Lightly oil muffin cups. Set aside. In a blender, grind the Flax Seeds. Add the water and process until you achieve a slightly gummy mixture, about 30 seconds. Set aside.
In a large bowl, combine the flours, seeds, baking powder and salt. To the flax seed mixture, add the water and oil and process until well blended and frothy, about 2 minutes. Stir this mixture into the dry ingredients, just until all of the flour has been absorbed, adding extra water if the mixture seems very dry.
Spoon the batter to the top of each muffin cup. Bake about 15-20 minutes or until a toothpick comes out clean. Set the muffin tin on a wire rack and allow to cool for 2-3 minutes.